0s autopkgtest [09:03:33]: starting date and time: 2024-11-13 09:03:33+0000 0s autopkgtest [09:03:33]: git checkout: 0acbae0a WIP show VirtSubproc stderr in real-time 0s autopkgtest [09:03:33]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.e125w1ap/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade nipy --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-9.secgroup --name adt-plucky-amd64-nipy-20241113-090333-juju-7f2275-prod-proposed-migration-environment-2-e6499abb-36c2-4aba-8abe-ad431c05ccf3 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration-amd64 -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 50s autopkgtest [09:04:23]: testbed dpkg architecture: amd64 50s autopkgtest [09:04:23]: testbed apt version: 2.9.8 50s autopkgtest [09:04:23]: @@@@@@@@@@@@@@@@@@@@ test bed setup 51s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 52s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 52s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 52s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 52s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 52s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [65.2 kB] 52s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB] 52s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 52s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [637 kB] 52s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [255 kB] 52s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [13.0 kB] 52s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [37.7 kB] 52s Fetched 2173 kB in 1s (2590 kB/s) 52s Reading package lists... 54s Reading package lists... 55s Building dependency tree... 55s Reading state information... 55s Calculating upgrade... 55s The following NEW packages will be installed: 55s python3.13-gdbm 55s The following packages will be upgraded: 55s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 55s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 55s Need to get 253 kB of archives. 55s After this operation, 147 kB of additional disk space will be used. 55s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 55s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 55s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 55s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 55s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 55s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.23.2-5ubuntu4 [152 kB] 56s Fetched 253 kB in 0s (605 kB/s) 56s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75541 files and directories currently installed.) 56s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 56s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 56s Setting up python3-minimal (3.12.7-1) ... 56s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75541 files and directories currently installed.) 56s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 56s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 56s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 56s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 56s Selecting previously unselected package python3.13-gdbm. 56s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 56s Unpacking python3.13-gdbm (3.13.0-2) ... 56s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 56s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 56s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_amd64.deb ... 56s Unpacking libgpgme11t64:amd64 (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 56s Setting up libgpgme11t64:amd64 (1.23.2-5ubuntu4) ... 56s Setting up python3.13-gdbm (3.13.0-2) ... 56s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 56s Setting up python3 (3.12.7-1) ... 56s Setting up python3-gdbm:amd64 (3.12.7-1) ... 56s Processing triggers for man-db (2.12.1-3) ... 57s Processing triggers for libc-bin (2.40-1ubuntu3) ... 57s Reading package lists... 57s Building dependency tree... 57s Reading state information... 57s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 58s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 58s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 58s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 58s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 59s Reading package lists... 59s Reading package lists... 59s Building dependency tree... 59s Reading state information... 59s Calculating upgrade... 59s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 59s Reading package lists... 59s Building dependency tree... 59s Reading state information... 60s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 63s autopkgtest [09:04:36]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 63s autopkgtest [09:04:36]: @@@@@@@@@@@@@@@@@@@@ apt-source nipy 66s Get:1 http://ftpmaster.internal/ubuntu plucky/universe nipy 0.6.1-1 (dsc) [2510 B] 66s Get:2 http://ftpmaster.internal/ubuntu plucky/universe nipy 0.6.1-1 (tar) [1653 kB] 66s Get:3 http://ftpmaster.internal/ubuntu plucky/universe nipy 0.6.1-1 (diff) [12.4 kB] 66s gpgv: Signature made Sun Oct 20 16:12:46 2024 UTC 66s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 66s gpgv: issuer "tchet@debian.org" 66s gpgv: Can't check signature: No public key 66s dpkg-source: warning: cannot verify inline signature for ./nipy_0.6.1-1.dsc: no acceptable signature found 66s autopkgtest [09:04:39]: testing package nipy version 0.6.1-1 67s autopkgtest [09:04:40]: build not needed 68s autopkgtest [09:04:41]: test command1: preparing testbed 69s Reading package lists... 69s Building dependency tree... 69s Reading state information... 69s Starting pkgProblemResolver with broken count: 0 69s Starting 2 pkgProblemResolver with broken count: 0 69s Done 69s The following additional packages will be installed: 69s fonts-mathjax libblas3 libgfortran5 libjs-jquery libjs-mathjax 69s libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0 python-nipy-doc 69s python3-decorator python3-iniconfig python3-mpmath python3-nibabel 69s python3-nipy python3-nipy-lib python3-numpy python3-packaging python3-pluggy 69s python3-pytest python3-scipy python3-sympy python3-transforms3d 69s Suggested packages: 69s fonts-mathjax-extras fonts-stix libjs-mathjax-doc python-mpmath-doc 69s python3-gmpy2 python3-matplotlib python-nibabel-doc python3-mvpa gcc 69s gfortran python-numpy-doc python3-dev python-scipy-doc texlive-fonts-extra 69s dvipng python-sympy-doc 69s Recommended packages: 69s javascript-common python3-pydicom python3-fuse python3-matplotlib mayavi2 69s g++ | c++-compiler python3-pil isympy-common 69s The following NEW packages will be installed: 69s autopkgtest-satdep fonts-mathjax libblas3 libgfortran5 libjs-jquery 69s libjs-mathjax libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0 69s python-nipy-doc python3-decorator python3-iniconfig python3-mpmath 70s python3-nibabel python3-nipy python3-nipy-lib python3-numpy 70s python3-packaging python3-pluggy python3-pytest python3-scipy python3-sympy 70s python3-transforms3d 70s 0 upgraded, 24 newly installed, 0 to remove and 0 not upgraded. 70s Need to get 47.6 MB/47.6 MB of archives. 70s After this operation, 217 MB of additional disk space will be used. 70s Get:1 /tmp/autopkgtest.pqxSyp/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [732 B] 70s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 70s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 70s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 70s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 70s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 70s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] 70s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 71s Get:9 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 71s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 71s Get:11 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 71s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB] 71s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 71s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 71s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 72s Get:16 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nibabel all 5.2.1-2 [2696 kB] 72s Get:17 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-1 [4228 kB] 72s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-transforms3d all 0.4.2+ds-1 [1359 kB] 72s Get:19 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nipy-lib amd64 0.6.1-1 [846 kB] 72s Get:20 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nipy all 0.6.1-1 [727 kB] 72s Get:21 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 72s Get:22 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 72s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 72s Get:24 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-nipy-doc all 0.6.1-1 [1970 kB] 72s Fetched 47.6 MB in 3s (18.7 MB/s) 72s Selecting previously unselected package fonts-mathjax. 72s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75548 files and directories currently installed.) 72s Preparing to unpack .../00-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 72s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 72s Selecting previously unselected package libblas3:amd64. 72s Preparing to unpack .../01-libblas3_3.12.0-3build2_amd64.deb ... 72s Unpacking libblas3:amd64 (3.12.0-3build2) ... 72s Selecting previously unselected package libgfortran5:amd64. 72s Preparing to unpack .../02-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 72s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 73s Selecting previously unselected package libjs-jquery. 73s Preparing to unpack .../03-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 73s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 73s Selecting previously unselected package libjs-underscore. 73s Preparing to unpack .../04-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 73s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 73s Selecting previously unselected package libjs-sphinxdoc. 73s Preparing to unpack .../05-libjs-sphinxdoc_7.4.7-4_all.deb ... 73s Unpacking libjs-sphinxdoc (7.4.7-4) ... 73s Selecting previously unselected package liblapack3:amd64. 73s Preparing to unpack .../06-liblapack3_3.12.0-3build2_amd64.deb ... 73s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 73s Selecting previously unselected package liblbfgsb0:amd64. 73s Preparing to unpack .../07-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 73s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 73s Selecting previously unselected package python3-decorator. 73s Preparing to unpack .../08-python3-decorator_5.1.1-5_all.deb ... 73s Unpacking python3-decorator (5.1.1-5) ... 73s Selecting previously unselected package python3-iniconfig. 73s Preparing to unpack .../09-python3-iniconfig_1.1.1-2_all.deb ... 73s Unpacking python3-iniconfig (1.1.1-2) ... 73s Selecting previously unselected package python3-mpmath. 73s Preparing to unpack .../10-python3-mpmath_1.3.0-1_all.deb ... 73s Unpacking python3-mpmath (1.3.0-1) ... 73s Selecting previously unselected package python3-numpy. 73s Preparing to unpack .../11-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 73s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 73s Selecting previously unselected package python3-packaging. 73s Preparing to unpack .../12-python3-packaging_24.1-1_all.deb ... 73s Unpacking python3-packaging (24.1-1) ... 73s Selecting previously unselected package python3-scipy. 73s Preparing to unpack .../13-python3-scipy_1.13.1-5_amd64.deb ... 73s Unpacking python3-scipy (1.13.1-5) ... 73s Selecting previously unselected package python3-nibabel. 73s Preparing to unpack .../14-python3-nibabel_5.2.1-2_all.deb ... 73s Unpacking python3-nibabel (5.2.1-2) ... 74s Selecting previously unselected package python3-sympy. 74s Preparing to unpack .../15-python3-sympy_1.13.3-1_all.deb ... 74s Unpacking python3-sympy (1.13.3-1) ... 74s Selecting previously unselected package python3-transforms3d. 74s Preparing to unpack .../16-python3-transforms3d_0.4.2+ds-1_all.deb ... 74s Unpacking python3-transforms3d (0.4.2+ds-1) ... 74s Selecting previously unselected package python3-nipy-lib:amd64. 74s Preparing to unpack .../17-python3-nipy-lib_0.6.1-1_amd64.deb ... 74s Unpacking python3-nipy-lib:amd64 (0.6.1-1) ... 74s Selecting previously unselected package python3-nipy. 74s Preparing to unpack .../18-python3-nipy_0.6.1-1_all.deb ... 74s Unpacking python3-nipy (0.6.1-1) ... 74s Selecting previously unselected package python3-pluggy. 74s Preparing to unpack .../19-python3-pluggy_1.5.0-1_all.deb ... 74s Unpacking python3-pluggy (1.5.0-1) ... 74s Selecting previously unselected package python3-pytest. 74s Preparing to unpack .../20-python3-pytest_8.3.3-1_all.deb ... 74s Unpacking python3-pytest (8.3.3-1) ... 74s Selecting previously unselected package libjs-mathjax. 74s Preparing to unpack .../21-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 74s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 75s Selecting previously unselected package python-nipy-doc. 75s Preparing to unpack .../22-python-nipy-doc_0.6.1-1_all.deb ... 75s Unpacking python-nipy-doc (0.6.1-1) ... 75s Selecting previously unselected package autopkgtest-satdep. 75s Preparing to unpack .../23-1-autopkgtest-satdep.deb ... 75s Unpacking autopkgtest-satdep (0) ... 75s Setting up python3-iniconfig (1.1.1-2) ... 75s Setting up fonts-mathjax (2.7.9+dfsg-1) ... 75s Setting up libjs-mathjax (2.7.9+dfsg-1) ... 75s Setting up python3-decorator (5.1.1-5) ... 75s Setting up libblas3:amd64 (3.12.0-3build2) ... 75s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 75s Setting up python3-packaging (24.1-1) ... 75s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 75s Setting up python3-pluggy (1.5.0-1) ... 75s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 75s Setting up python3-mpmath (1.3.0-1) ... 76s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 76s Setting up python3-sympy (1.13.3-1) ... 81s Setting up liblapack3:amd64 (3.12.0-3build2) ... 81s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 81s Setting up python3-pytest (8.3.3-1) ... 81s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 82s Setting up libjs-sphinxdoc (7.4.7-4) ... 82s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 82s Setting up python3-transforms3d (0.4.2+ds-1) ... 82s Setting up python3-scipy (1.13.1-5) ... 85s Setting up python-nipy-doc (0.6.1-1) ... 85s Setting up python3-nibabel (5.2.1-2) ... 85s Setting up python3-nipy-lib:amd64 (0.6.1-1) ... 85s Setting up python3-nipy (0.6.1-1) ... 86s Setting up autopkgtest-satdep (0) ... 86s Processing triggers for man-db (2.12.1-3) ... 86s Processing triggers for libc-bin (2.40-1ubuntu3) ... 89s (Reading database ... 85962 files and directories currently installed.) 89s Removing autopkgtest-satdep (0) ... 90s autopkgtest [09:05:03]: test command1: cd debian/tests && python3 -m pytest nipy_test.py 90s autopkgtest [09:05:03]: test command1: [----------------------- 90s ============================= test session starts ============================== 90s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 90s rootdir: /tmp/autopkgtest.pqxSyp/build.UeP/src 90s configfile: pyproject.toml 90s plugins: typeguard-4.4.1 90s collected 4 items 90s 90s nipy_test.py .... [100%] 90s 90s =============================== warnings summary =============================== 90s debian/tests/nipy_test.py::test_image_save_to_file 90s /usr/lib/python3/dist-packages/nipy/io/files.py:141: FutureWarning: Default `strict` currently False; this will change to True in a future version of nipy 90s ni_img = nipy2nifti(img, data_dtype = io_dtype) 90s 90s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 90s ========================= 4 passed, 1 warning in 0.16s ========================= 91s autopkgtest [09:05:04]: test command1: -----------------------] 91s command1 PASS 91s autopkgtest [09:05:04]: test command1: - - - - - - - - - - results - - - - - - - - - - 92s autopkgtest [09:05:05]: test autodep8-python3: preparing testbed 161s autopkgtest [09:06:14]: testbed dpkg architecture: amd64 161s autopkgtest [09:06:14]: testbed apt version: 2.9.8 161s autopkgtest [09:06:14]: @@@@@@@@@@@@@@@@@@@@ test bed setup 162s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 163s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 163s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 163s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 163s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 163s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB] 163s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [65.2 kB] 163s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 163s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [637 kB] 163s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [255 kB] 163s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [37.7 kB] 163s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [13.0 kB] 163s Fetched 2173 kB in 1s (2685 kB/s) 163s Reading package lists... 165s Reading package lists... 165s Building dependency tree... 165s Reading state information... 165s Calculating upgrade... 166s The following NEW packages will be installed: 166s python3.13-gdbm 166s The following packages will be upgraded: 166s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 166s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 166s Need to get 253 kB of archives. 166s After this operation, 147 kB of additional disk space will be used. 166s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 166s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 166s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 166s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 166s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 166s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.23.2-5ubuntu4 [152 kB] 166s Fetched 253 kB in 0s (609 kB/s) 166s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75541 files and directories currently installed.) 166s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 166s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 167s Setting up python3-minimal (3.12.7-1) ... 167s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75541 files and directories currently installed.) 167s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 167s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 167s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 167s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 167s Selecting previously unselected package python3.13-gdbm. 167s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 167s Unpacking python3.13-gdbm (3.13.0-2) ... 167s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 167s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 167s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_amd64.deb ... 167s Unpacking libgpgme11t64:amd64 (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 167s Setting up libgpgme11t64:amd64 (1.23.2-5ubuntu4) ... 167s Setting up python3.13-gdbm (3.13.0-2) ... 167s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 167s Setting up python3 (3.12.7-1) ... 167s Setting up python3-gdbm:amd64 (3.12.7-1) ... 167s Processing triggers for man-db (2.12.1-3) ... 167s Processing triggers for libc-bin (2.40-1ubuntu3) ... 168s Reading package lists... 168s Building dependency tree... 168s Reading state information... 168s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 169s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 169s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 169s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 169s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 169s Reading package lists... 170s Reading package lists... 170s Building dependency tree... 170s Reading state information... 170s Calculating upgrade... 170s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 170s Reading package lists... 170s Building dependency tree... 170s Reading state information... 170s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 175s Reading package lists... 175s Building dependency tree... 175s Reading state information... 175s Starting pkgProblemResolver with broken count: 0 175s Starting 2 pkgProblemResolver with broken count: 0 175s Done 175s The following additional packages will be installed: 175s libblas3 libgfortran5 liblapack3 liblbfgsb0 libpython3.13-minimal 175s libpython3.13-stdlib python3-all python3-decorator python3-mpmath 175s python3-nibabel python3-nipy python3-nipy-lib python3-numpy 175s python3-packaging python3-scipy python3-sympy python3-transforms3d 175s python3.13 python3.13-minimal 175s Suggested packages: 175s python-mpmath-doc python3-gmpy2 python3-matplotlib python-nibabel-doc 175s python3-mvpa gcc gfortran python-numpy-doc python3-dev python3-pytest 175s python-scipy-doc texlive-fonts-extra dvipng python-sympy-doc python3.13-venv 175s python3.13-doc binfmt-support 175s Recommended packages: 175s python3-pydicom python3-fuse python3-matplotlib mayavi2 g++ | c++-compiler 175s python3-pil isympy-common 175s The following NEW packages will be installed: 175s autopkgtest-satdep libblas3 libgfortran5 liblapack3 liblbfgsb0 175s libpython3.13-minimal libpython3.13-stdlib python3-all python3-decorator 175s python3-mpmath python3-nibabel python3-nipy python3-nipy-lib python3-numpy 175s python3-packaging python3-scipy python3-sympy python3-transforms3d 175s python3.13 python3.13-minimal 175s 0 upgraded, 20 newly installed, 0 to remove and 0 not upgraded. 175s Need to get 42.7 MB/42.7 MB of archives. 175s After this operation, 178 MB of additional disk space will be used. 175s Get:1 /tmp/autopkgtest.pqxSyp/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [712 B] 176s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 176s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 176s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 176s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 176s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 176s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 176s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 176s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 176s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 176s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 176s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB] 176s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 176s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 176s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 177s Get:16 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nibabel all 5.2.1-2 [2696 kB] 177s Get:17 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-1 [4228 kB] 177s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-transforms3d all 0.4.2+ds-1 [1359 kB] 177s Get:19 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nipy-lib amd64 0.6.1-1 [846 kB] 177s Get:20 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nipy all 0.6.1-1 [727 kB] 177s Fetched 42.7 MB in 2s (25.3 MB/s) 177s Selecting previously unselected package libpython3.13-minimal:amd64. 177s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75548 files and directories currently installed.) 177s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 177s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 178s Selecting previously unselected package python3.13-minimal. 178s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 178s Unpacking python3.13-minimal (3.13.0-2) ... 178s Selecting previously unselected package libblas3:amd64. 178s Preparing to unpack .../02-libblas3_3.12.0-3build2_amd64.deb ... 178s Unpacking libblas3:amd64 (3.12.0-3build2) ... 178s Selecting previously unselected package libgfortran5:amd64. 178s Preparing to unpack .../03-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 178s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 178s Selecting previously unselected package liblapack3:amd64. 178s Preparing to unpack .../04-liblapack3_3.12.0-3build2_amd64.deb ... 178s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 178s Selecting previously unselected package liblbfgsb0:amd64. 178s Preparing to unpack .../05-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 178s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 178s Selecting previously unselected package libpython3.13-stdlib:amd64. 178s Preparing to unpack .../06-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 178s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 178s Selecting previously unselected package python3.13. 178s Preparing to unpack .../07-python3.13_3.13.0-2_amd64.deb ... 178s Unpacking python3.13 (3.13.0-2) ... 178s Selecting previously unselected package python3-all. 178s Preparing to unpack .../08-python3-all_3.12.7-1_amd64.deb ... 178s Unpacking python3-all (3.12.7-1) ... 178s Selecting previously unselected package python3-decorator. 178s Preparing to unpack .../09-python3-decorator_5.1.1-5_all.deb ... 178s Unpacking python3-decorator (5.1.1-5) ... 178s Selecting previously unselected package python3-mpmath. 178s Preparing to unpack .../10-python3-mpmath_1.3.0-1_all.deb ... 178s Unpacking python3-mpmath (1.3.0-1) ... 178s Selecting previously unselected package python3-numpy. 178s Preparing to unpack .../11-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 178s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 178s Selecting previously unselected package python3-packaging. 178s Preparing to unpack .../12-python3-packaging_24.1-1_all.deb ... 178s Unpacking python3-packaging (24.1-1) ... 178s Selecting previously unselected package python3-scipy. 178s Preparing to unpack .../13-python3-scipy_1.13.1-5_amd64.deb ... 178s Unpacking python3-scipy (1.13.1-5) ... 179s Selecting previously unselected package python3-nibabel. 179s Preparing to unpack .../14-python3-nibabel_5.2.1-2_all.deb ... 179s Unpacking python3-nibabel (5.2.1-2) ... 179s Selecting previously unselected package python3-sympy. 179s Preparing to unpack .../15-python3-sympy_1.13.3-1_all.deb ... 179s Unpacking python3-sympy (1.13.3-1) ... 179s Selecting previously unselected package python3-transforms3d. 179s Preparing to unpack .../16-python3-transforms3d_0.4.2+ds-1_all.deb ... 179s Unpacking python3-transforms3d (0.4.2+ds-1) ... 179s Selecting previously unselected package python3-nipy-lib:amd64. 179s Preparing to unpack .../17-python3-nipy-lib_0.6.1-1_amd64.deb ... 179s Unpacking python3-nipy-lib:amd64 (0.6.1-1) ... 179s Selecting previously unselected package python3-nipy. 179s Preparing to unpack .../18-python3-nipy_0.6.1-1_all.deb ... 179s Unpacking python3-nipy (0.6.1-1) ... 179s Selecting previously unselected package autopkgtest-satdep. 179s Preparing to unpack .../19-2-autopkgtest-satdep.deb ... 179s Unpacking autopkgtest-satdep (0) ... 179s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 179s Setting up python3-decorator (5.1.1-5) ... 179s Setting up libblas3:amd64 (3.12.0-3build2) ... 179s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 179s Setting up python3-packaging (24.1-1) ... 179s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 179s Setting up python3.13-minimal (3.13.0-2) ... 180s Setting up python3-mpmath (1.3.0-1) ... 181s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 181s Setting up python3-sympy (1.13.3-1) ... 190s Setting up liblapack3:amd64 (3.12.0-3build2) ... 190s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 190s Setting up python3.13 (3.13.0-2) ... 191s Setting up python3-all (3.12.7-1) ... 191s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 193s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 193s Setting up python3-transforms3d (0.4.2+ds-1) ... 194s Setting up python3-scipy (1.13.1-5) ... 199s Setting up python3-nibabel (5.2.1-2) ... 199s Setting up python3-nipy-lib:amd64 (0.6.1-1) ... 199s Setting up python3-nipy (0.6.1-1) ... 200s Setting up autopkgtest-satdep (0) ... 200s Processing triggers for systemd (256.5-2ubuntu4) ... 200s Processing triggers for man-db (2.12.1-3) ... 201s Processing triggers for libc-bin (2.40-1ubuntu3) ... 203s (Reading database ... 81371 files and directories currently installed.) 203s Removing autopkgtest-satdep (0) ... 205s autopkgtest [09:06:58]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import nipy; print(nipy)" ; done 205s autopkgtest [09:06:58]: test autodep8-python3: [----------------------- 205s Testing with python3.13: 205s Traceback (most recent call last): 205s File "/usr/lib/python3/dist-packages/numpy/core/__init__.py", line 24, in 205s from . import multiarray 205s File "/usr/lib/python3/dist-packages/numpy/core/multiarray.py", line 10, in 205s from . import overrides 205s File "/usr/lib/python3/dist-packages/numpy/core/overrides.py", line 8, in 205s from numpy.core._multiarray_umath import ( 205s add_docstring, _get_implementing_args, _ArrayFunctionDispatcher) 205s ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 205s 205s During handling of the above exception, another exception occurred: 205s 205s Traceback (most recent call last): 205s File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 130, in 205s from numpy.__config__ import show as show_config 205s File "/usr/lib/python3/dist-packages/numpy/__config__.py", line 4, in 205s from numpy.core._multiarray_umath import ( 205s ...<3 lines>... 205s ) 205s File "/usr/lib/python3/dist-packages/numpy/core/__init__.py", line 50, in 205s raise ImportError(msg) 205s ImportError: 205s 205s IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 205s 205s Importing the numpy C-extensions failed. This error can happen for 205s many reasons, often due to issues with your setup or how NumPy was 205s installed. 205s 205s We have compiled some common reasons and troubleshooting tips at: 205s 205s https://numpy.org/devdocs/user/troubleshooting-importerror.html 205s 205s Please note and check the following: 205s 205s * The Python version is: Python3.13 from "/usr/bin/python3.13" 205s * The NumPy version is: "1.26.4" 205s 205s and make sure that they are the versions you expect. 205s Please carefully study the documentation linked above for further help. 205s 205s Original error was: No module named 'numpy.core._multiarray_umath' 205s 205s 205s The above exception was the direct cause of the following exception: 205s 205s Traceback (most recent call last): 205s File "", line 1, in 205s import nipy; print(nipy) 205s ^^^^^^^^^^^ 205s File "/usr/lib/python3/dist-packages/nipy/__init__.py", line 30, in 205s from nipy.core.api import is_image 205s File "/usr/lib/python3/dist-packages/nipy/core/api.py", line 14, in 205s from .image.image import ( 205s ...<7 lines>... 205s ) 205s File "/usr/lib/python3/dist-packages/nipy/core/image/__init__.py", line 13, in 205s from . import image 205s File "/usr/lib/python3/dist-packages/nipy/core/image/image.py", line 19, in 205s import numpy as np 205s File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 135, in 205s raise ImportError(msg) from e 205s ImportError: Error importing numpy: you should not try to import numpy from 205s its source directory; please exit the numpy source tree, and relaunch 205s your python interpreter from there. 205s autopkgtest [09:06:58]: test autodep8-python3: -----------------------] 206s autodep8-python3 FAIL non-zero exit status 1 206s autopkgtest [09:06:59]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 206s autopkgtest [09:06:59]: @@@@@@@@@@@@@@@@@@@@ summary 206s command1 PASS 206s autodep8-python3 FAIL non-zero exit status 1 212s virt: nova [W] Skipping flock for amd64 212s virt: Creating nova instance adt-plucky-amd64-nipy-20241113-090333-juju-7f2275-prod-proposed-migration-environment-2-e6499abb-36c2-4aba-8abe-ad431c05ccf3 from image adt/ubuntu-plucky-amd64-server-20241113.img (UUID 62c21ac4-2290-4c8d-8313-dddd18eacff4)... 212s virt: nova [W] Skipping flock for amd64 212s virt: Creating nova instance adt-plucky-amd64-nipy-20241113-090333-juju-7f2275-prod-proposed-migration-environment-2-e6499abb-36c2-4aba-8abe-ad431c05ccf3 from image adt/ubuntu-plucky-amd64-server-20241113.img (UUID 62c21ac4-2290-4c8d-8313-dddd18eacff4)...